Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 54 of 210
Found at i:19017755 original size:22 final size:23
Alignment explanation
Indices: 19017728--19017772 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19017718 AGGTATCTAC
19017728 AAATCAAAT-ATCTAAGATTACA
1 AAATCAAATCATCTAAGATTACA
* *
19017750 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCATCTAAGATTACA
19017773 GATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCATCTAAGATTACA
Found at i:19017766 original size:23 final size:22
Alignment explanation
Indices: 19017725--19017782 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
19017715 AAAAGGTATC
* *
19017725 TACAAATCAAAT-ATCTAAGAT
1 TACAAATCATATCTTCTAAGAT
19017746 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
19017769 TACAGATCATATCT
1 TACAAATCATATCT
19017783 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:19017780 original size:22 final size:23
Alignment explanation
Indices: 19017738--19017782 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19017728 AAATCAAATA
19017738 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
19017761 TCTAAGATTAC-AGATCATATCT
1 TCTAAGATTACAAAATCATATCT
19017783 ACGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:19018758 original size:17 final size:17
Alignment explanation
Indices: 19018726--19018772 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
19018716 AAACAATATT
*
19018726 TTAAAATGAT-AAAATC
1 TTAAAATAATAAAAATC
19018742 TTAAAATAATAAAAATC
1 TTAAAATAATAAAAATC
* *
19018759 GTAAAATAACAAAA
1 TTAAAATAATAAAA
19018773 TCACCGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (17 bp):
TTAAAATAATAAAAATC
Found at i:19029126 original size:6 final size:6
Alignment explanation
Indices: 19029109--19029138 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
19029099 TTAACTAATC
19029109 ATTATAA ATTATA ATTATA ATTATA ATTAT
1 ATTAT-A ATTATA ATTATA ATTATA ATTAT
19029139 CACAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:19031545 original size:26 final size:26
Alignment explanation
Indices: 19031513--19031563 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
19031503 TTTAAATAAA
*
19031513 TAATTAATA-AATTCAGTTGATCAAAT
1 TAATTAATAGAA-TCAATTGATCAAAT
19031539 TAATTAATAGAATCAATTGATCAAA
1 TAATTAATAGAATCAATTGATCAAA
19031564 CCAATTACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (26 bp):
TAATTAATAGAATCAATTGATCAAAT
Found at i:19031569 original size:26 final size:26
Alignment explanation
Indices: 19031514--19031570 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
19031504 TTAAATAAAT
* **
19031514 AATTAATAAATTCAGTTGATCAAATT
1 AATTAATAAATTCAATTGATCAAACC
19031540 AATTAATAGAA-TCAATTGATCAAACC
1 AATTAATA-AATTCAATTGATCAAACC
19031566 AATTA
1 AATTA
19031571 CTGCAATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 25 0.93
27 2 0.07
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (26 bp):
AATTAATAAATTCAATTGATCAAACC
Found at i:19031756 original size:27 final size:25
Alignment explanation
Indices: 19031726--19031776 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
19031716 ATTAAATAAC
*
19031726 TTAACATATTTTTAATTTATTAATATT
1 TTAACATATTTTCAA--TATTAATATT
*
19031753 TTAATATATTTTCAATATTAATAT
1 TTAACATATTTTCAATATTAATAT
19031777 CATAGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
27 13 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAACATATTTTCAATATTAATATT
Found at i:19033516 original size:33 final size:33
Alignment explanation
Indices: 19033434--19033517 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
19033424 TGGTTCAACC
* * ** *
19033434 ATGGTCTTACGTTCAAGGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAACCCAGCT
* *
19033467 ATGGTCTTTTCA-TTAAAATGCCATAGCCCAGCT
1 ATGGTC-TTACATTTAAAATGCCATAACCCAGCT
19033500 ATGGTCTTACATTTAAAA
1 ATGGTCTTACATTTAAAA
19033518 ATTGCCATGG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 4 0.10
33 34 0.83
34 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAACCCAGCT
Found at i:19039450 original size:149 final size:150
Alignment explanation
Indices: 19039267--19039571 Score: 596
Period size: 149 Copynumber: 2.0 Consensus size: 150
19039257 ATTAAAATTA
19039267 TTTAA-AAAGTATAAAAATTATAAAAATATTTTTAATTTTTAAAAATAATTAATTGTTGATGTGG
1 TTTAATAAAGTATAAAAATTATAAAAATATTTTTAATTTTTAAAAATAATTAATTGTTGATGTGG
19039331 CATACACATGGACTGTCACATTAACAAAGTTAATAAATATTAACTTTTCCATCTATTTTTAGGGT
66 CATACACATGGACTGTCACATTAACAAAGTTAATAAATATTAACTTTTCCATCTATTTTTAGGGT
19039396 GATTTGACAGACAATACAAG
131 GATTTGACAGACAATACAAG
19039416 TTTAATAAAGTAT-AAAATTATAAAAATATTTTTAATTTTTAAAAATAATTAATTGTTGATGTGG
1 TTTAATAAAGTATAAAAATTATAAAAATATTTTTAATTTTTAAAAATAATTAATTGTTGATGTGG
19039480 CATACACATGGACTGTCACATTAACAAAGTTAATAAATATTAACTTTTCCATCTATTTTTAGGGT
66 CATACACATGGACTGTCACATTAACAAAGTTAATAAATATTAACTTTTCCATCTATTTTTAGGGT
19039545 GATTTGACAGACAATACAAG
131 GATTTGACAGACAATACAAG
19039565 TTTAATA
1 TTTAATA
19039572 GCTGAAAGAG
Statistics
Matches: 155, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
149 148 0.95
150 7 0.05
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (150 bp):
TTTAATAAAGTATAAAAATTATAAAAATATTTTTAATTTTTAAAAATAATTAATTGTTGATGTGG
CATACACATGGACTGTCACATTAACAAAGTTAATAAATATTAACTTTTCCATCTATTTTTAGGGT
GATTTGACAGACAATACAAG
Found at i:19040992 original size:14 final size:15
Alignment explanation
Indices: 19040973--19041001 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19040963 TATGTGACAT
19040973 AATTTAA-AATAAAA
1 AATTTAAGAATAAAA
19040987 AATTTAAGAATAAAA
1 AATTTAAGAATAAAA
19041002 TTAATCTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AATTTAAGAATAAAA
Found at i:19047228 original size:60 final size:60
Alignment explanation
Indices: 19047135--19047257 Score: 228
Period size: 60 Copynumber: 2.0 Consensus size: 60
19047125 TAACAAGAGA
19047135 CCAATGAATTATAGATAGGCCTATTAAAAACTTCCAAATGGCATGGGTGGGGGAGGCAAC
1 CCAATGAATTATAGATAGGCCTATTAAAAACTTCCAAATGGCATGGGTGGGGGAGGCAAC
* *
19047195 CCAATGAATTATAGATAGGCCTATTAAGAACTTCCAGATGGCATGGGTGGGGGAGGCAAC
1 CCAATGAATTATAGATAGGCCTATTAAAAACTTCCAAATGGCATGGGTGGGGGAGGCAAC
19047255 CCA
1 CCA
19047258 TCTATATACC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (60 bp):
CCAATGAATTATAGATAGGCCTATTAAAAACTTCCAAATGGCATGGGTGGGGGAGGCAAC
Found at i:19052889 original size:24 final size:24
Alignment explanation
Indices: 19052853--19052902 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
19052843 TCTGGTGTTT
19052853 CCCGTTAAGTGCTCTTCGGAGCTA
1 CCCGTTAAGTGCTCTTCGGAGCTA
* * *
19052877 CCCGTTAATTGCTTTTTGGAGCTA
1 CCCGTTAAGTGCTCTTCGGAGCTA
19052901 CC
1 CC
19052903 TATTATGGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.34
Consensus pattern (24 bp):
CCCGTTAAGTGCTCTTCGGAGCTA
Found at i:19065793 original size:7 final size:6
Alignment explanation
Indices: 19065767--19065791 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19065757 AATAAATATA
19065767 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
19065792 TAATTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:19071266 original size:17 final size:17
Alignment explanation
Indices: 19071244--19071285 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
19071234 GGTTATTGGT
19071244 TTAGGGTTAGGTTAGAG
1 TTAGGGTTAGGTTAGAG
19071261 TTAGGGTTAGGTTAGAG
1 TTAGGGTTAGGTTAGAG
19071278 TTAGGGTT
1 TTAGGGTT
19071286 TAAGAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (17 bp):
TTAGGGTTAGGTTAGAG
Found at i:19071482 original size:94 final size:96
Alignment explanation
Indices: 19071384--19071613 Score: 297
Period size: 94 Copynumber: 2.4 Consensus size: 96
19071374 CGTGTTTATT
* * *
19071384 GTTTTTAAGAAAAAATCAATTAAATTAGGGCTTAGGGTTACTTGAGTAATTTAATTA-AAAAATT
1 GTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAAATT
19071448 TAA-AAATCATA-TT-AGGGTTTAGAGTTAAGG
66 TAATAAAT--TAGTTAAGGGTTTAGAGTTAAGG
* * **
19071478 GTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAATTAATTATAAATTTT
1 GTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAAATT
* * *
19071543 TAATAAATTAGTTAATGGTTTAGTGTTTAGG
66 TAATAAATTAGTTAAGGGTTTAGAGTTAAGG
* *
19071574 GTTTTTAAGTAAAAACTCAAATAAATTAGGGTTTGGGGTT
1 GTTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTT
19071614 TAGGGTTACT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
94 54 0.46
95 10 0.09
96 27 0.23
97 26 0.22
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (96 bp):
GTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAAATT
TAATAAATTAGTTAAGGGTTTAGAGTTAAGG
Found at i:19071734 original size:13 final size:13
Alignment explanation
Indices: 19071716--19071744 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19071706 TAAAAAAATG
19071716 ATTTCGAGTAGAC
1 ATTTCGAGTAGAC
19071729 ATTTCGAGTAGAC
1 ATTTCGAGTAGAC
19071742 ATT
1 ATT
19071745 CCTTGAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (13 bp):
ATTTCGAGTAGAC
Found at i:19074745 original size:12 final size:13
Alignment explanation
Indices: 19074712--19074749 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
19074702 TTGGTTTTAC
19074712 ATGAAGAAAAAA-
1 ATGAAGAAAAAAT
*
19074724 ATGAAAAAAAAAT
1 ATGAAGAAAAAAT
19074737 AT-AAGAAAAAAT
1 ATGAAGAAAAAAT
19074749 A
1 A
19074750 ATGCTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 21 0.91
13 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (13 bp):
ATGAAGAAAAAAT
Found at i:19074904 original size:26 final size:26
Alignment explanation
Indices: 19074853--19074905 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
19074843 TACCACCTTG
**
19074853 GGAAAAAAAATTTAGATACTTTGAAT
1 GGAAAAAAAATTTAGATACTGAGAAT
*
19074879 GGAAAAAAAAGTTTAGGTAC-GAGAAT
1 GGAAAAAAAA-TTTAGATACTGAGAAT
19074905 G
1 G
19074906 ATAGAAATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.49, C:0.04, G:0.23, T:0.25
Consensus pattern (26 bp):
GGAAAAAAAATTTAGATACTGAGAAT
Found at i:19081659 original size:31 final size:30
Alignment explanation
Indices: 19081590--19081662 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
19081580 TAATTTGATC
* * *
19081590 AAATTTAATTCATGTACTTTTCGAATTGGTT
1 AAATTTAGTCCATGTACATTTCGAATT-GTT
19081621 AAATTTAGTCCATGTACATTTCGAATT-TT
1 AAATTTAGTCCATGTACATTTCGAATTGTT
19081650 GAAATTTTAGTCC
1 -AAA-TTTAGTCC
19081663 TAACTCAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 2 0.05
30 3 0.08
31 32 0.86
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (30 bp):
AAATTTAGTCCATGTACATTTCGAATTGTT
Found at i:19082897 original size:17 final size:17
Alignment explanation
Indices: 19082843--19082904 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
19082833 TATGGGTCAA
*
19082843 TTGTGGATTTAGAAGAATT
1 TTGT-GATTTAG-TGAATT
* *
19082862 TT-TGAATTAGTGGATT
1 TTGTGATTTAGTGAATT
*
19082878 TTGTGATTTATTGAATT
1 TTGTGATTTAGTGAATT
19082895 TTGTGATTTA
1 TTGTGATTTA
19082905 AAAAGAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 6 0.17
17 27 0.75
18 1 0.03
19 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (17 bp):
TTGTGATTTAGTGAATT
Found at i:19083713 original size:46 final size:45
Alignment explanation
Indices: 19083648--19083834 Score: 223
Period size: 46 Copynumber: 4.1 Consensus size: 45
19083638 TCCATGGCAA
* * *
19083648 AGTT-TGAAACGTAGGTATGGTATTCCAGTGAAGAAAACCATACTA
1 AGTTGTGAAAAGTAGGTATGGTATTCC-GTAAAGAAAACCATACTG
* ** *
19083693 AGTTGTGAAAAGTATGTATGGTATTTTGGTAAAAAAAACCATACTG
1 AGTTGTGAAAAGTAGGTATGGTA-TTCCGTAAAGAAAACCATACTG
*
19083739 AGTTGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTG
1 AGTTGTGAAAAGTAGGTATGGTATTCCG-TAAAGAAAACCATACTG
* * * *
19083785 AGTCGTGAAAAGTAGGTAGGGTATTTCCGTGAAGAAAATCATACTG
1 AGTTGTGAAAAGTAGGTATGGTA-TTCCGTAAAGAAAACCATACTG
19083831 AGTT
1 AGTT
19083835 ATAGCCTTGT
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
45 8 0.07
46 108 0.89
47 6 0.05
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (45 bp):
AGTTGTGAAAAGTAGGTATGGTATTCCGTAAAGAAAACCATACTG
Found at i:19085688 original size:27 final size:27
Alignment explanation
Indices: 19085647--19085705 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
19085637 AAAATATTAC
* *
19085647 TAAAAAATAATAATTTTACTTTT-TAAT
1 TAAATAATAAAAATTTT-CTTTTATAAT
*
19085674 TAAATAATAAAAATTTTCTTTTATATT
1 TAAATAATAAAAATTTTCTTTTATAAT
19085701 TAAAT
1 TAAAT
19085706 TTTTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
TAAATAATAAAAATTTTCTTTTATAAT
Found at i:19085822 original size:22 final size:22
Alignment explanation
Indices: 19085797--19085838 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19085787 TAAGTTTTAA
19085797 ATAAAAT-ATATTTATAAATAAC
1 ATAAAATCATATTTA-AAATAAC
*
19085819 ATAAAATCATTTTTAAAATA
1 ATAAAATCATATTTAAAATA
19085839 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAAAATCATATTTAAAATAAC
Found at i:19086887 original size:16 final size:16
Alignment explanation
Indices: 19086868--19086900 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19086858 GTTAAGACAG
19086868 TTAGTAGTTAGCAGAA
1 TTAGTAGTTAGCAGAA
*
19086884 TTAGTTGTTAGCAGAA
1 TTAGTAGTTAGCAGAA
19086900 T
1 T
19086901 CAGTTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (16 bp):
TTAGTAGTTAGCAGAA
Found at i:19086905 original size:16 final size:16
Alignment explanation
Indices: 19086874--19086905 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19086864 ACAGTTAGTA
*
19086874 GTTAGCAGAATTAGTT
1 GTTAGCAGAATCAGTT
19086890 GTTAGCAGAATCAGTT
1 GTTAGCAGAATCAGTT
19086906 ATATACAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (16 bp):
GTTAGCAGAATCAGTT
Found at i:19098116 original size:3 final size:3
Alignment explanation
Indices: 19098108--19098169 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
19098098 NNNNNNNNAG
19098108 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19098156 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
19098170 GTGAGAATTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19109023 original size:12 final size:13
Alignment explanation
Indices: 19108997--19109025 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19108987 CATACATGTA
19108997 TTAATTTTTTAAT
1 TTAATTTTTTAAT
19109010 TTAATTTTTT-AT
1 TTAATTTTTTAAT
19109022 TTAA
1 TTAA
19109026 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTAATTTTTTAAT
Found at i:19110407 original size:20 final size:20
Alignment explanation
Indices: 19110344--19110407 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
19110334 GCTCAAATCT
*
19110344 TAAACTT-AAACCTTAAACCC
1 TAAACTTGAATCC-TAAACCC
* * *
19110364 CAAACTAGAGTCCTAAACCC
1 TAAACTTGAATCCTAAACCC
*
19110384 TAAACTTGAATCCTAAACCT
1 TAAACTTGAATCCTAAACCC
19110404 TAAA
1 TAAA
19110408 TAAATAATGC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.91
21 3 0.09
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (20 bp):
TAAACTTGAATCCTAAACCC
Found at i:19116124 original size:9 final size:9
Alignment explanation
Indices: 19116110--19116194 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
19116100 TTTGGTTAAA
19116110 AATTAACCG
1 AATTAACCG
19116119 AATTAACCG
1 AATTAACCG
* *
19116128 AATTACCCA
1 AATTAACCG
19116137 AATTAACCG
1 AATTAACCG
*
19116146 AATTACCCG
1 AATTAACCG
*
19116155 AATTACCCG
1 AATTAACCG
*
19116164 AATTACCCG
1 AATTAACCG
*
19116173 AATTAACCA
1 AATTAACCG
*
19116182 AATTAACCA
1 AATTAACCG
19116191 AATT
1 AATT
19116195 GAATCACTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 69 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:19116142 original size:27 final size:27
Alignment explanation
Indices: 19116109--19116194 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 27
19116099 TTTTGGTTAA
19116109 AAATTAACCGAATTAACCGAATTACCC
1 AAATTAACCGAATTAACCGAATTACCC
*
19116136 AAATTAACCGAATTACCCGAATTACCC
1 AAATTAACCGAATTAACCGAATTACCC
* * * *
19116163 GAATTACCCGAATTAACCAAATTAACC
1 AAATTAACCGAATTAACCGAATTACCC
19116190 AAATT
1 AAATT
19116195 GAATCACTAC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.23
Consensus pattern (27 bp):
AAATTAACCGAATTAACCGAATTACCC
Found at i:19117627 original size:19 final size:20
Alignment explanation
Indices: 19117585--19117627 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
19117575 TCATGCTTTC
*
19117585 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
19117605 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
19117623 TATTC
1 TATTC
19117628 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:19118586 original size:8 final size:8
Alignment explanation
Indices: 19118575--19118604 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
19118565 TAAGTTATTA
19118575 TATTATAT
1 TATTATAT
*
19118583 TATTATAA
1 TATTATAT
19118591 TATTATAT
1 TATTATAT
19118599 TATTAT
1 TATTAT
19118605 TATATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:19118593 original size:16 final size:16
Alignment explanation
Indices: 19118569--19118609 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
19118559 AATAAGTAAG
19118569 TTATTATATTATATTA
1 TTATTATATTATATTA
*
19118585 TTATAATATTATATTA
1 TTATTATATTATATTA
19118601 TTATTATAT
1 TTATTATAT
19118610 ACATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:19120704 original size:29 final size:29
Alignment explanation
Indices: 19120656--19120713 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
19120646 TTAATCAATT
19120656 CTAATCAATAATTCTATCAA-ATAAACCC
1 CTAATCAATAATTCTATCAACATAAACCC
* *
19120684 CTAATTCAATCATT-TATTCAACATGAACCC
1 CTAA-TCAATAATTCTA-TCAACATAAACCC
19120714 TACTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (29 bp):
CTAATCAATAATTCTATCAACATAAACCC
Found at i:19120897 original size:25 final size:25
Alignment explanation
Indices: 19120858--19120923 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 25
19120848 CTTATTTCTC
* *
19120858 CTTTCTTTCTTTCCCTTTTTCTTTT
1 CTTTCTTTCTTTCCCTGTTTCGTTT
19120883 CTTTCTTT-TTCTCCCTGTTTCGTTT
1 CTTTCTTTCTT-TCCCTGTTTCGTTT
19120908 CTATTCTGCTTCTTTC
1 CT-TTCT--TTCTTTC
19120924 TATTTCTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 2 0.06
25 22 0.65
26 4 0.12
28 4 0.12
29 2 0.06
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.65
Consensus pattern (25 bp):
CTTTCTTTCTTTCCCTGTTTCGTTT
Found at i:19121108 original size:15 final size:15
Alignment explanation
Indices: 19121069--19121113 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
19121059 TCATTAATCT
*
19121069 AATAAT-ATAATATC
1 AATAATAATAATAAC
19121083 AATTAAATAATAATAAC
1 AA-T-AATAATAATAAC
19121100 AATAATAATAATAA
1 AATAATAATAATAA
19121114 TTACTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.07
15 12 0.44
16 4 0.15
17 9 0.33
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAATAATAAC
Found at i:19123384 original size:42 final size:41
Alignment explanation
Indices: 19123332--19123434 Score: 152
Period size: 42 Copynumber: 2.5 Consensus size: 41
19123322 GCTCTCGGTA
* *
19123332 TCGCACACTTAGTGCTCGTTATTCAACGTTGTCATTTCAATT
1 TCGCACACTTAGTGC-CGTTATTCAACATCGTCATTTCAATT
* *
19123374 TCGCACACTTAGTGCCTGTTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCC-GTTATTCAACATCGTCATTTCAATT
19123416 TCGCACACTTAGTGCCGTT
1 TCGCACACTTAGTGCCGTT
19123435 CGTATAGCCG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
41 4 0.07
42 52 0.93
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (41 bp):
TCGCACACTTAGTGCCGTTATTCAACATCGTCATTTCAATT
Found at i:19124347 original size:30 final size:31
Alignment explanation
Indices: 19124312--19124375 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 31
19124302 TTAGATAAAT
19124312 TTTAAAGA--TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTA-TAGGATTCAATTACTC
19124342 TTTAAAGAGTTTTTCATAGGATTCAATTACTC
1 TTTAAAGAGTTTTT-ATAGGATTCAATTACTC
19124374 TT
1 TT
19124376 GTAATTTGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 8 0.26
32 22 0.71
33 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTTATAGGATTCAATTACTC
Found at i:19125423 original size:48 final size:48
Alignment explanation
Indices: 19125371--19125468 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
19125361 ACTACTTGGA
*
19125371 ATTTCGATGGATTTTCAGGGGTACACCTAAGTGTACAAATCCGGGTCC
1 ATTTCGATGGATGTTCAGGGGTACACCTAAGTGTACAAATCCGGGTCC
19125419 ATTTCGATGGATGTTCAGGGGTACACCTAAGTGTACAAATCCGGGTCC
1 ATTTCGATGGATGTTCAGGGGTACACCTAAGTGTACAAATCCGGGTCC
19125467 AT
1 AT
19125469 CAATTCATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (48 bp):
ATTTCGATGGATGTTCAGGGGTACACCTAAGTGTACAAATCCGGGTCC
Found at i:19130232 original size:26 final size:26
Alignment explanation
Indices: 19130181--19130235 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
19130171 TAATTTATAA
*
19130181 TTAAAAATTAAAAATAATATCAATTT
1 TTAAAAATTAAAAATAATAACAATTT
*
19130207 TTAAAAATTTAATAAA-AATAACATTTT
1 TTAAAAA-TTAA-AAATAATAACAATTT
19130234 TT
1 TT
19130236 TATTAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 15 0.60
28 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAAAAATTAAAAATAATAACAATTT
Found at i:19133771 original size:45 final size:45
Alignment explanation
Indices: 19133707--19133798 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
19133697 GTGTAAGAAG
19133707 TAGAACATATATATTGAGAATTTATGTATGTTTTATATTAACAGA
1 TAGAACATATATATTGAGAATTTATGTATGTTTTATATTAACAGA
19133752 TAGAACATATATATTGAGAATTTATGTATGTTTTATATTAACAGA
1 TAGAACATATATATTGAGAATTTATGTATGTTTTATATTAACAGA
19133797 TA
1 TA
19133799 AAGATATCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (45 bp):
TAGAACATATATATTGAGAATTTATGTATGTTTTATATTAACAGA
Found at i:19141840 original size:42 final size:43
Alignment explanation
Indices: 19141793--19141961 Score: 159
Period size: 42 Copynumber: 4.0 Consensus size: 43
19141783 TGCTATAGGG
* *
19141793 AAACCTGTAAGGGTTAAACAGAAGCTCATAGGAGCTGAAC-GA
1 AAACCTGTAAGGGTTAAACTGAAGCTCATAAGAGCTGAACTGA
* * * * *
19141835 AAACCTATAAGGGTTAATCTGAAGCTCAAAATAGCTAAACTGA
1 AAACCTGTAAGGGTTAAACTGAAGCTCATAAGAGCTGAACTGA
* *
19141878 AACCCAT-T-AGGGTTAAACTGAAGCTCACAAGAGCTGAACTGA
1 AAACC-TGTAAGGGTTAAACTGAAGCTCATAAGAGCTGAACTGA
* * * * * *
19141920 AACCCAG-AAGGGTCAAACTGAAACTCATATGAGTTG-ACTGA
1 AAACCTGTAAGGGTTAAACTGAAGCTCATAAGAGCTGAACTGA
19141961 A
1 A
19141962 GCTCATGAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
41 6 0.06
42 91 0.87
43 7 0.07
44 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (43 bp):
AAACCTGTAAGGGTTAAACTGAAGCTCATAAGAGCTGAACTGA
Found at i:19143592 original size:17 final size:17
Alignment explanation
Indices: 19143570--19143627 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
19143560 CTACAAACCA
19143570 CCATCAAACGACTAACT
1 CCATCAAACGACTAACT
*
19143587 CCATCAATAGGAACTAGA--
1 CCATCAA-ACG-ACTA-ACT
*
19143605 -AATCAAACGACTAACT
1 CCATCAAACGACTAACT
19143621 CCATCAA
1 CCATCAA
19143628 GGGACACGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
14 1 0.03
15 4 0.13
16 2 0.06
17 17 0.55
18 2 0.06
19 4 0.13
20 1 0.03
ACGTcount: A:0.45, C:0.29, G:0.09, T:0.17
Consensus pattern (17 bp):
CCATCAAACGACTAACT
Found at i:19148394 original size:42 final size:40
Alignment explanation
Indices: 19148328--19148462 Score: 144
Period size: 42 Copynumber: 3.2 Consensus size: 40
19148318 AGGCTGCAAA
* * * * *
19148328 GAAGCACATAAGTGCTAAATGGAAACTCGTAAGGGTTAAACG
1 GAAGCTCATAAGAGCTGAACGGAAAC-C-TAAGGGTTAAACT
19148370 GAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
1 GAAGCTCATAAGAGCTGAACGGAAA-CC-TAAGGGTTAAACT
* **
19148412 GAAGCTCAAAAGAGCTGAACTAAAACCTGAAGGGTTAAACT
1 GAAGCTCATAAGAGCTGAACGGAAACCT-AAGGGTTAAACT
*
19148453 GAAACTCATA
1 GAAGCTCATA
19148463 TGAGTTAACT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 22 0.28
42 56 0.70
43 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (40 bp):
GAAGCTCATAAGAGCTGAACGGAAACCTAAGGGTTAAACT
Found at i:19148495 original size:21 final size:21
Alignment explanation
Indices: 19148334--19148497 Score: 102
Period size: 21 Copynumber: 7.9 Consensus size: 21
19148324 CAAAGAAGCA
*
19148334 CATAAGTGCTAAA-TGGAAACT
1 CATAAGAGCTAAACT-GAAACT
* * * * *
19148355 CGTAAGGGTTAAACGGAAGCT
1 CATAAGAGCTAAACTGAAACT
* * *
19148376 CATAAGAGCTGAACGGAAACC
1 CATAAGAGCTAAACTGAAACT
* * *
19148397 CATAAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACTGAAACT
* * *
19148418 CAAAAGAGCTGAACTAAAAC-
1 CATAAGAGCTAAACTGAAACT
* *
19148438 C-TGAAGGGTTAAACTGAAACT
1 CAT-AAGAGCTAAACTGAAACT
* * *
19148459 CATATGAG-TTAACTGAAGCT
1 CATAAGAGCTAAACTGAAACT
19148479 CATAAGAGCTAAACTGAAA
1 CATAAGAGCTAAACTGAAA
19148498 GCAAACACGG
Statistics
Matches: 103, Mismatches: 35, Indels: 10
0.70 0.24 0.07
Matches are distributed among these distances:
20 31 0.30
21 71 0.69
22 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (21 bp):
CATAAGAGCTAAACTGAAACT
Found at i:19153267 original size:270 final size:271
Alignment explanation
Indices: 19152781--19153307 Score: 655
Period size: 270 Copynumber: 1.9 Consensus size: 271
19152771 TAAATATTTT
19152781 AAAATATCCTAAAATTTGGAATAAATAAATAAATAATATAAAACCTAATAAATACAATATTAGGC
1 AAAATATCCTAAAATTTGG---AAATAAATAAATAATATAAAACCTAATAAATACAATATTAGGC
* * * *
19152846 TCACATATAATCAAAATTAAGCCTTAAAATCAAATTTAAACTCGAATTAAAGTCTGAAAGTCATA
63 TCACAGATAATCAAAATTAAGCCTTAAAATCAAATTAAAACTCGAATTAAAGCCCGAAAGTCATA
* *
19152911 ATAATCCCGTCCAAAAATTTTATTCTTGCAACCTTCACTAAAACAACCATAACTTGAGCTCCCAA
128 ATAATCCCGTCCAAAAATTTTATTCATGCAACCTTCAATAAAACAACCATAACTTGAGCTCCCAA
** * * * * *
19152976 ACTTGAAACCGAGTAATTCAAAGTGCATTTTGAAGCTAATAGATAGTTCTTCGATTGATATAGAG
193 ACTCAAAACCGAGTAATTCAAAGTACATTTTGAAGCTAACAGATAGCTCTTCAATCGATATAGAG
19153041 AAATCTCAACCTAG
258 AAATCTCAACCTAG
* * *
19153055 AAAATATCCTAAATTTTGG-AATAAATAAATAATATAAAACCTAATAAATATAATATTGGGC-CT
1 AAAATATCCTAAAATTTGGAAATAAATAAATAATATAAAACCTAATAAATACAATATTAGGCTC-
* * * ** *
19153118 ACAGATAATCAAAATTAAGTCTTCAAATCGAATTAAAACTTTAATTAAAGCCCGAAAGTCGTAAT
65 ACAGATAATCAAAATTAAGCCTTAAAATCAAATTAAAACTCGAATTAAAGCCCGAAAGTCATAAT
*** * * * **** *
19153183 AATTTTGTCCATAAATTTTGCTT-ATGCAATCTTCAATAAAATGGTCATAACTTGAGCTTCCAAA
130 AATCCCGTCCAAAAATTTT-ATTCATGCAACCTTCAATAAAACAACCATAACTTGAGCTCCCAAA
* * * *
19153247 CTCAAAATCGGGTGATTCAAAGTATATTTTGAAGCTAACAGATAGCTCTTCAATCGATATA
194 CTCAAAACCGAGTAATTCAAAGTACATTTTGAAGCTAACAGATAGCTCTTCAATCGATATA
19153308 AAGACATTTT
Statistics
Matches: 214, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
269 1 0.00
270 193 0.90
271 2 0.01
274 18 0.08
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (271 bp):
AAAATATCCTAAAATTTGGAAATAAATAAATAATATAAAACCTAATAAATACAATATTAGGCTCA
CAGATAATCAAAATTAAGCCTTAAAATCAAATTAAAACTCGAATTAAAGCCCGAAAGTCATAATA
ATCCCGTCCAAAAATTTTATTCATGCAACCTTCAATAAAACAACCATAACTTGAGCTCCCAAACT
CAAAACCGAGTAATTCAAAGTACATTTTGAAGCTAACAGATAGCTCTTCAATCGATATAGAGAAA
TCTCAACCTAG
Found at i:19156527 original size:46 final size:46
Alignment explanation
Indices: 19156455--19156585 Score: 199
Period size: 46 Copynumber: 2.8 Consensus size: 46
19156445 CTAATGCTAT
* * *
19156455 AACTCAGTATGGTTTCCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
19156501 AACTCAATATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
19156547 AACTCAGTATGGCTTTCTTCACTAAAACATCATACCTAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTAC
19156586 GTATCCCTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:19157824 original size:15 final size:15
Alignment explanation
Indices: 19157804--19157834 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19157794 ATACCAAGAG
19157804 TATGATTAAAATATT
1 TATGATTAAAATATT
19157819 TATGATTAAAATATT
1 TATGATTAAAATATT
19157834 T
1 T
19157835 TTACACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TATGATTAAAATATT
Found at i:19161884 original size:18 final size:18
Alignment explanation
Indices: 19161850--19161884 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19161840 TAATACTTTA
* *
19161850 TATATATTATTTTATTTT
1 TATATATTATGTAATTTT
19161868 TATATATTATGTAATTT
1 TATATATTATGTAATTT
19161885 AGAACATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TATATATTATGTAATTTT
Found at i:19161885 original size:22 final size:20
Alignment explanation
Indices: 19161846--19161885 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19161836 TTTATAATAC
*
19161846 TTTATATATATTATTTTATT
1 TTTATATATATTAATTTATT
19161866 TTTATATATTATGTAATTTA
1 TTTATATA-TAT-TAATTTA
19161886 GAACATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTATATATATTAATTTATT
Found at i:19165530 original size:71 final size:71
Alignment explanation
Indices: 19165445--19165602 Score: 280
Period size: 71 Copynumber: 2.2 Consensus size: 71
19165435 AGTACATAAT
19165445 TTAGAGAATGACAGAGTTAAATCAATTTCCAATTTAGAGATATTAGGTTGAGACCCTGGGAAGTT
1 TTAGAGAATGACAGAGTTAAATCAATTTCCAATTTAGAGATATTAGGTTGAGACCCTGGGAAGTT
19165510 CATGGG
66 CATGGG
* * *
19165516 TTAGAGTATGACAGAGTTAAATCCATTTCCAATTTAGAGATATTAGGTTTAGACCCTGGGAAGTT
1 TTAGAGAATGACAGAGTTAAATCAATTTCCAATTTAGAGATATTAGGTTGAGACCCTGGGAAGTT
19165581 CATGGG
66 CATGGG
*
19165587 TTAGAGGATGACAGAG
1 TTAGAGAATGACAGAG
19165603 AGTTAAACTG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 83 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (71 bp):
TTAGAGAATGACAGAGTTAAATCAATTTCCAATTTAGAGATATTAGGTTGAGACCCTGGGAAGTT
CATGGG
Found at i:19165652 original size:73 final size:71
Alignment explanation
Indices: 19165407--19165658 Score: 274
Period size: 71 Copynumber: 3.5 Consensus size: 71
19165397 TGATGTGACT
* * ***
19165407 TTTAGAAATCTTAGGTTCAAACCCT-GGAAGTACATAATTTAGAGAATGACAGAGTTAAATCAAT
1 TTTAGAGATATTAGGTTCAAACCCTGGGAAGTACATGGGTTAGAGAATGACAGAGTTAAATCAAT
19165471 TTCCAA
66 TTCCAA
* * * * *
19165477 TTTAGAGATATTAGGTTGAGACCCTGGGAAGTTCATGGGTTAGAGTATGACAGAGTTAAATCCAT
1 TTTAGAGATATTAGGTTCAAACCCTGGGAAGTACATGGGTTAGAGAATGACAGAGTTAAATCAAT
19165542 TTCCAA
66 TTCCAA
* * * *
19165548 TTTAGAGATATTAGGTTTAGACCCTGGGAAGTTCATGGGTTAGAGGATGACAGAGAGTTAAA-CT
1 TTTAGAGATATTAGGTTCAAACCCTGGGAAGTACATGGGTTAGAGAATGAC--AGAGTTAAATC-
* *
19165612 GATTTCCAG
63 AATTTCCAA
** * * *
19165621 GATAGAGATCTTAGGTTCAAACCTTGTGAAGTACATGG
1 TTTAGAGATATTAGGTTCAAACCCTGGGAAGTACATGG
19165659 ATTCGGAATG
Statistics
Matches: 156, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
70 21 0.13
71 88 0.56
72 1 0.01
73 46 0.29
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (71 bp):
TTTAGAGATATTAGGTTCAAACCCTGGGAAGTACATGGGTTAGAGAATGACAGAGTTAAATCAAT
TTCCAA
Found at i:19179901 original size:26 final size:27
Alignment explanation
Indices: 19179872--19179922 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
19179862 GAACTATGAT
*
19179872 TGACAGGAATACT-GTTATTAATCTTG
1 TGACAGGAACACTAGTTATTAATCTTG
* *
19179898 TGACTGGAACACTATTTATTAATCT
1 TGACAGGAACACTAGTTATTAATCT
19179923 ATTGTTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (27 bp):
TGACAGGAACACTAGTTATTAATCTTG
Found at i:19185601 original size:13 final size:13
Alignment explanation
Indices: 19185583--19185607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19185573 AATTGCTTAT
19185583 CAAATGCATATAC
1 CAAATGCATATAC
19185596 CAAATGCATATA
1 CAAATGCATATA
19185608 TATTTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CAAATGCATATAC
Found at i:19185889 original size:41 final size:41
Alignment explanation
Indices: 19185839--19185916 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
19185829 TGTATCACCA
* * * *
19185839 GCATTAAGCCTGCTAGACGTATAGTCTGAATAATTTCTCCG
1 GCATAAAGCCTGCTAGACATAAAATCTGAATAATTTCTCCG
*
19185880 GCATAAAGCCTGCTAGACATAAAATCTGAATTATTTC
1 GCATAAAGCCTGCTAGACATAAAATCTGAATAATTTC
19185917 ACTGGCAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (41 bp):
GCATAAAGCCTGCTAGACATAAAATCTGAATAATTTCTCCG
Found at i:19190924 original size:13 final size:13
Alignment explanation
Indices: 19190908--19190937 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
19190898 AACGATCTCT
19190908 TATGGGTATTCTA
1 TATGGGTATTCTA
19190921 TATGGGTATTCTA
1 TATGGGTATTCTA
19190934 TATG
1 TATG
19190938 TTCTATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (13 bp):
TATGGGTATTCTA
Found at i:19193076 original size:76 final size:76
Alignment explanation
Indices: 19192939--19193080 Score: 196
Period size: 76 Copynumber: 1.9 Consensus size: 76
19192929 AATTGAGTTT
* ** **
19192939 TCTTATAAATAGAGAAACTATAAATTAATATATAGTGAAATTACACTTTGAGTCCCCAATTTTTT
1 TCTTATAAATAAAGAAACTATAAATTAATATATAGAAAAATTACACTTTGAACCCCCAATTTTTT
19193004 TAATTCAATCC
66 TAATTCAATCC
* * *
19193015 TCTTATAGATAAAGAAATTATAAATTAATATATAGAAAAATTACA-TTTTAACCCCCTAATTTTT
1 TCTTATAAATAAAGAAACTATAAATTAATATATAGAAAAATTACACTTTGAACCCCC-AATTTTT
19193079 TT
65 TT
19193081 TTGTTTAGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
75 8 0.14
76 49 0.86
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (76 bp):
TCTTATAAATAAAGAAACTATAAATTAATATATAGAAAAATTACACTTTGAACCCCCAATTTTTT
TAATTCAATCC
Found at i:19193131 original size:22 final size:23
Alignment explanation
Indices: 19193100--19193163 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 23
19193090 CCCTTAAAAA
*
19193100 ATGATGAAATTATAAATTAATAC
1 ATGATAAAATTATAAATTAATAC
** * *
19193123 AT-ATAAAATTATATTTTGATAT
1 ATGATAAAATTATAAATTAATAC
19193145 ATGATAAAATTAT-AATTAA
1 ATGATAAAATTATAAATTAA
19193164 ATTTCGGCCC
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (23 bp):
ATGATAAAATTATAAATTAATAC
Found at i:19194918 original size:28 final size:26
Alignment explanation
Indices: 19194828--19194920 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 26
19194818 TATATGTAAT
* *
19194828 TATTTTCTTATTAAAATTTATTTTATA
1 TATTTTATTATTTAAATTTA-TTTATA
*
19194855 TATAATATTATATATTTAAATTTTTATTGATCA
1 TAT--T-TTAT-TATTTAAA--TTTATTTAT-A
19194888 TATTTTATTATTTAAATTATAGTTTATA
1 TATTTTATTATTTAAATT-TA-TTTATA
19194916 TATTT
1 TATTT
19194921 GAATTAAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
27 5 0.09
28 8 0.15
29 13 0.25
30 7 0.13
31 8 0.15
32 4 0.08
33 8 0.15
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
TATTTTATTATTTAAATTTATTTATA
Found at i:19194933 original size:20 final size:19
Alignment explanation
Indices: 19194889--19194934 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
19194879 TATTGATCAT
*
19194889 ATTTTATTATTTAAATTAT
1 ATTTTATTATTTAAATTAA
* *
19194908 AGTTTATATATTTGAATTAA
1 ATTTTAT-TATTTAAATTAA
19194928 ATTTTAT
1 ATTTTAT
19194935 GAATAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
ATTTTATTATTTAAATTAA
Found at i:19207256 original size:22 final size:22
Alignment explanation
Indices: 19207203--19207253 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
19207193 AATTAAATAA
*
19207203 TTTAGTATTTATGCTTTTATTT
1 TTTAGAATTTATGCTTTTATTT
*
19207225 TATT-GAATTTAATTCTTTTATTT
1 T-TTAGAATTT-ATGCTTTTATTT
19207248 TTTAGA
1 TTTAGA
19207254 TTTCAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.65
Consensus pattern (22 bp):
TTTAGAATTTATGCTTTTATTT
Found at i:19207689 original size:31 final size:30
Alignment explanation
Indices: 19207637--19207695 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
19207627 TCACCAAAGG
* *
19207637 TTTTATTTTTTCTTTCTTTTTAATATATAA
1 TTTTATTTTTTCTTTCATTTTAACATATAA
19207667 TTTTATTATTTTCTCTT-ATTTTAACATAT
1 TTTTATT-TTTTCT-TTCATTTTAACATAT
19207696 TTCTTGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 16 0.64
32 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (30 bp):
TTTTATTTTTTCTTTCATTTTAACATATAA
Found at i:19207827 original size:13 final size:13
Alignment explanation
Indices: 19207809--19207838 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19207799 AGTTTTTCAA
*
19207809 AATTCAATCTTTG
1 AATTCAATCTTTC
19207822 AATTCAATCTTTC
1 AATTCAATCTTTC
19207835 AATT
1 AATT
19207839 GAGTTTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (13 bp):
AATTCAATCTTTC
Found at i:19207872 original size:2 final size:2
Alignment explanation
Indices: 19207865--19207891 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19207855 TGTTCAAGTT
19207865 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19207892 TGAAATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19211097 original size:19 final size:19
Alignment explanation
Indices: 19211068--19211118 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 19
19211058 AATATTAGCT
19211068 ATTTTTAATTTTAAATA-A
1 ATTTTTAATTTTAAATATA
19211086 ATTTTATAATTTTAAATATA
1 ATTTT-TAATTTTAAATATA
19211106 ATTTTTATATTTT
1 ATTTTTA-ATTTT
19211119 TCTAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.17
19 14 0.47
20 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTAATTTTAAATATA
Found at i:19213516 original size:5 final size:5
Alignment explanation
Indices: 19213506--19213532 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19213496 TAAAAAAGAT
19213506 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
19213533 CTTCATGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:19213517 original size:15 final size:15
Alignment explanation
Indices: 19213499--19213532 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19213489 CATCCTGTAA
*
19213499 AAAAGATAATAAAAT
1 AAAAGAAAATAAAAT
*
19213514 AAAATAAAATAAAAT
1 AAAAGAAAATAAAAT
19213529 AAAA
1 AAAA
19213533 CTTCATGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAGAAAATAAAAT
Found at i:19222829 original size:18 final size:18
Alignment explanation
Indices: 19222785--19222829 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
19222775 TTTAGATTTT
*
19222785 AATTCACTTTCATACAAC
1 AATTCACTTTCATAAAAC
* * *
19222803 ATTTTACTTTCATAAAAG
1 AATTCACTTTCATAAAAC
19222821 AATTCACTT
1 AATTCACTT
19222830 AAATAGTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (18 bp):
AATTCACTTTCATAAAAC
Found at i:19233878 original size:16 final size:16
Alignment explanation
Indices: 19233834--19233878 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
19233824 ATTACATCAT
*
19233834 TATTCCATTACAACTC
1 TATTCCATTACAGCTC
*
19233850 TATTCAATTACAGCTC
1 TATTCCATTACAGCTC
19233866 TATTCCATTACAG
1 TATTCCATTACAG
19233879 TGAACCAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:19236518 original size:21 final size:22
Alignment explanation
Indices: 19236493--19236533 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19236483 GGTTTAACCA
*
19236493 TTAAACCTAAATT-TTAAAATT
1 TTAAAACTAAATTCTTAAAATT
*
19236514 TTAAAATTAAATTCTTAAAA
1 TTAAAACTAAATTCTTAAAA
19236534 ATAAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAACTAAATTCTTAAAATT
Found at i:19242247 original size:8 final size:8
Alignment explanation
Indices: 19242236--19242261 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
19242226 CAAAGACAAT
19242236 AAGAAGAA
1 AAGAAGAA
19242244 AAGAAGAA
1 AAGAAGAA
19242252 AAGAAGAA
1 AAGAAGAA
19242260 AA
1 AA
19242262 AGGAAATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (8 bp):
AAGAAGAA
Found at i:19244679 original size:64 final size:67
Alignment explanation
Indices: 19244607--19244730 Score: 200
Period size: 67 Copynumber: 1.9 Consensus size: 67
19244597 TTAAAAATAT
*
19244607 ATTTAATTAATT-CATA-TTATATATATAATATTTACACATACTATAATTT-AGTGCATGTATAA
1 ATTTAATTAATTACATATTTATATATATAATATTTACACATACTACAATTTAAGTGCATGTATAA
19244669 AG
66 AG
*
19244671 ATTTAATTAATTCACATATTTATATATATAATATTTATACATACTACAATTTAAGTGCAT
1 ATTTAATTAATT-ACATATTTATATATATAATATTTACACATACTACAATTTAAGTGCAT
19244731 ATACTAATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
64 12 0.22
66 4 0.07
67 31 0.57
68 7 0.13
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (67 bp):
ATTTAATTAATTACATATTTATATATATAATATTTACACATACTACAATTTAAGTGCATGTATAA
AG
Found at i:19245223 original size:69 final size:68
Alignment explanation
Indices: 19245091--19245223 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 68
19245081 ACATTTTAAG
* * ***
19245091 TTAAAATTAACTTTTAATAAAAGTAGTGAAGAAGTAAGCTATGAAAGTATTCTCTAGTTAATGTG
1 TTAAAATTAACTTTTAATAAAAATAGTGAAGAAGTAAGCTATGAAAGTAATCTCTAAACAATGTG
19245156 GGA
66 GGA
* * *
19245159 TTAAAATTAATTTTTTAATAAAAATAGTGAAGAAGTGAGCTATGAGAGTAATCTCTAAACAATGT
1 TTAAAATTAA-CTTTTAATAAAAATAGTGAAGAAGTAAGCTATGAAAGTAATCTCTAAACAATGT
19245224 ATTTATTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
68 10 0.18
69 46 0.82
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (68 bp):
TTAAAATTAACTTTTAATAAAAATAGTGAAGAAGTAAGCTATGAAAGTAATCTCTAAACAATGTG
GGA
Found at i:19247215 original size:2 final size:2
Alignment explanation
Indices: 19247208--19247244 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
19247198 CGAGTTTTGA
19247208 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19247245 ACTTAATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19254972 original size:19 final size:18
Alignment explanation
Indices: 19254948--19254995 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
19254938 CATGAATCAT
*
19254948 AAAAATTAATTATATATAA
1 AAAAATTAAGTA-ATATAA
19254967 AAAAATTAAAGTAATATAA
1 AAAAATT-AAGTAATATAA
19254986 ATAAAATTAA
1 A-AAAATTAA
19254996 AGTAGGAGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAATTAAGTAATATAA
Found at i:19254993 original size:20 final size:19
Alignment explanation
Indices: 19254948--19254999 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
19254938 CATGAATCAT
*
19254948 AAAAATT-AATTATATATAA
1 AAAAATTAAAGTA-ATATAA
19254967 AAAAATTAAAGTAATATAA
1 AAAAATTAAAGTAATATAA
19254986 ATAAAATTAAAGTA
1 A-AAAATTAAAGTA
19255000 GGAGCGACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATTAAAGTAATATAA
Found at i:19257020 original size:9 final size:10
Alignment explanation
Indices: 19256999--19257027 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
19256989 TTGCTTGTTT
19256999 TGAATAGAAA
1 TGAATAGAAA
19257009 TGAATA-AAA
1 TGAATAGAAA
19257018 TGAATAGAAA
1 TGAATAGAAA
19257028 AAAAAATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:19257047 original size:17 final size:16
Alignment explanation
Indices: 19256999--19257050 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 16
19256989 TTGCTTGTTT
19256999 TGAATAGAAATGAATAAAA
1 TGAATAGAAA--AA-AAAA
19257018 TGAATAGAAAAAAAAA
1 TGAATAGAAAAAAAAA
19257034 TCGAAT-GAATAAAAAAA
1 T-GAATAGAA-AAAAAAA
19257051 GAGAAATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.26
17 13 0.42
19 10 0.32
ACGTcount: A:0.67, C:0.02, G:0.13, T:0.17
Consensus pattern (16 bp):
TGAATAGAAAAAAAAA
Found at i:19257337 original size:25 final size:26
Alignment explanation
Indices: 19257303--19257363 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
19257293 ACATATTTTC
* *
19257303 TCAAAATTTTA-CTAGGGAAAAATCG
1 TCAAAATTTTACCAAGGGAAAAATCA
*
19257328 TCAAAATTTTACCAAGGGTAAAATCA
1 TCAAAATTTTACCAAGGGAAAAATCA
19257354 TCAAAATTTT
1 TCAAAATTTT
19257364 GTTGGGGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGAAAAATCA
Found at i:19258067 original size:43 final size:43
Alignment explanation
Indices: 19258017--19258098 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
19258007 CGCTTTAGTG
*
19258017 GAAGCGCCGCTAAAGACCATGATCTTTAGCGACATTTTTGGGA
1 GAAGCGCCGCTAAAGACCAGGATCTTTAGCGACATTTTTGGGA
* * * *
19258060 GAAGCGCCGCTAAAGATCAGGGTCTTTCGCGGCATTTTT
1 GAAGCGCCGCTAAAGACCAGGATCTTTAGCGACATTTTT
19258099 CTCTCAAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (43 bp):
GAAGCGCCGCTAAAGACCAGGATCTTTAGCGACATTTTTGGGA
Found at i:19258172 original size:86 final size:86
Alignment explanation
Indices: 19258101--19258355 Score: 352
Period size: 86 Copynumber: 3.0 Consensus size: 86
19258091 GCATTTTTCT
19258101 CTCAAACGCCGTAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCT
1 CTCAAACGCCGTAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCT
19258166 ATTCTTTAGCGGCGCTTTCCC
66 ATTCTTTAGCGGCGCTTTCCC
* * * *
19258187 CTCAAACGCTGCAATAGACCCTGATCTATAGCGGTGCTTCGATCACAAACGCCACTAAAGAACCT
1 CTCAAACGCCGTAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCT
*
19258252 AATCTTTAGCGGCGCTTTCCC
66 ATTCTTTAGCGGCGCTTTCCC
* * * * *** * *
19258273 CACAAACGCCGCTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCC
1 CTCAAACGCCG-TAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACC
19258337 T-TATCTTTAGCGGCGCTTT
65 TAT-TCTTTAGCGGCGCTTT
19258356 GACCAAAAAC
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
86 146 0.99
87 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (86 bp):
CTCAAACGCCGTAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCT
ATTCTTTAGCGGCGCTTTCCC
Found at i:19258303 original size:129 final size:129
Alignment explanation
Indices: 19258124--19258375 Score: 314
Period size: 129 Copynumber: 2.0 Consensus size: 129
19258114 ATAGACCCTG
*
19258124 ATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTATTCTTTAGCGGCGCTTTCCCCT
1 ATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTATTCTTTAGCGGCGCTTTCCCCA
* * * *
19258189 CAAACGCTGC-AATAGACCCTGATCTATAGCGGTGCTTCGATCACAAACGCCACTAAAGAACCTA
66 CAAACGCCGCTAA-AGACCCTGATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCTA
* * * * **
19258253 ATCTTTAGCGGCGCTTTC-CCCACAAACGCCGCTAAAG-ACC-ATGATCTTTAGTGGCGCTTTTT
1 ATCTATAGCGGCGC-TTCGACCACAAACGCCACTAAAGAACCTAT--TCTTTAGCGGCGCTTTCC
* * *
19258315 CCACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAG
63 CCACAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAG
19258376 GCCAACACTT
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
127 2 0.02
128 3 0.03
129 95 0.90
130 5 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (129 bp):
ATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTATTCTTTAGCGGCGCTTTCCCCA
CAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCTA
Found at i:19258374 original size:43 final size:43
Alignment explanation
Indices: 19258103--19258375 Score: 273
Period size: 43 Copynumber: 6.3 Consensus size: 43
19258093 ATTTTTCTCT
* * *
19258103 CAAACGCC-GTAATAGACCCTGATCTATAGCGGCGCTTCGACCA
1 CAAACGCCACTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA
* ** *
19258146 CAAACGCCACTAAAGAACCT-ATTCTTTAGCGGCGCTTTCCCCT
1 CAAACGCCACTAAAGACCCTGA-TCTTTAGCGGCGCTTTGACCA
** * * * *
19258189 CAAACGCTGC-AATAGACCCTGATCTATAGCGGTGCTTCGATCA
1 CAAACGCCACTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA
* * **
19258232 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCA
1 CAAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* * * **
19258275 CAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCA
1 CAAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* *
19258318 CAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCA
1 CAAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
*
19258361 AAAACGCCACTAAAG
1 CAAACGCCACTAAAG
19258376 GCCAACACTT
Statistics
Matches: 184, Mismatches: 41, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
42 3 0.02
43 175 0.95
44 6 0.03
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (43 bp):
CAAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
Found at i:19258822 original size:66 final size:66
Alignment explanation
Indices: 19258716--19258857 Score: 207
Period size: 66 Copynumber: 2.2 Consensus size: 66
19258706 GTCATCGACT
*
19258716 GCTTCTCTTGCTGCCGCATCTACTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 GCTTCTCTCGCTGCCGCATCTACTTTAAGCTGCTGCTGGAGTTCTTCATATCTTT-GTTGAACCT
19258780 CA
65 CA
* * * *
19258782 GCTTCTCTCGCTGCTGCATCTACTTTCAGTTG-TAGCTGGAGTTCTTCATATCTTTTTTGAACCT
1 GCTTCTCTCGCTGCCGCATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATATCTTTGTTGAACCT
19258846 CA
65 CA
19258848 GCTTCTCTCG
1 GCTTCTCTCG
19258858 ATGTTGCCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 64 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCTACTTTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:19258879 original size:66 final size:66
Alignment explanation
Indices: 19258716--19258880 Score: 190
Period size: 66 Copynumber: 2.5 Consensus size: 66
19258706 GTCATCGACT
* * * * *
19258716 GCTTCTCTTGCTGCCGCATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCT
1 GCTTCTCTCGATGCTGCATCCACTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCT
19258780 CA
65 CA
* * * *
19258782 GCTTCTCTCGCTGCTGCATCTACTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCT
1 GCTTCTCTCGATGCTGCATCCACTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCT
19258846 CA
65 CA
* * *
19258848 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GCTTCTCTCGATGCTGCATCCACTTTAAGTTGT
19258881 GTAATTTGCT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.94
67 4 0.05
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTTCTCTCGATGCTGCATCCACTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTC
A
Found at i:19267990 original size:15 final size:16
Alignment explanation
Indices: 19267963--19268005 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
19267953 AACTTAAAAC
*
19267963 TACTTAACTTTTT-AA
1 TACTTAATTTTTTCAA
19267978 TACTTAATTTTTTCAA
1 TACTTAATTTTTTCAA
* *
19267994 CAGTTAATTTTT
1 TACTTAATTTTT
19268006 CAGTTTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (16 bp):
TACTTAATTTTTTCAA
Found at i:19268356 original size:22 final size:22
Alignment explanation
Indices: 19268319--19268447 Score: 78
Period size: 22 Copynumber: 6.0 Consensus size: 22
19268309 TTTTTTTCAT
*
19268319 AATTTA-AATAAAAAACATAAA
1 AATTTATAAAAAAAAACATAAA
*
19268340 AATTTATAAAAAAAAAC-TATA
1 AATTTATAAAAAAAAACATAAA
*
19268361 AA---ATAAAAAAATA-A-AAA
1 AATTTATAAAAAAAAACATAAA
* * * *
19268378 AATATCTAGAAAAATACATATTAA
1 AATTTATAAAAAAAAACATA--AA
*
19268402 AA-TTACTAAAAATAAAAAATAAA
1 AATTTA-TAAAAA-AAAACATAAA
19268425 AATTTA-AAAAAAAAACTATAAA
1 AATTTATAAAAAAAAAC-ATAAA
19268447 A
1 A
19268448 TAAAAAAATA
Statistics
Matches: 83, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
17 4 0.05
18 10 0.12
20 9 0.11
21 16 0.19
22 21 0.25
23 5 0.06
24 12 0.14
25 6 0.07
ACGTcount: A:0.71, C:0.05, G:0.01, T:0.23
Consensus pattern (22 bp):
AATTTATAAAAAAAAACATAAA
Found at i:19268421 original size:7 final size:7
Alignment explanation
Indices: 19268409--19268462 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
19268399 TAAAATTACT
19268409 AAAAATA
1 AAAAATA
19268416 AAAAATA
1 AAAAATA
* *
19268423 AAAATTT
1 AAAAATA
19268430 AAAAA-A
1 AAAAATA
*
19268436 AAAACTA
1 AAAAATA
*
19268443 TAAAATAA
1 AAAAAT-A
19268451 AAAAATA
1 AAAAATA
19268458 AAAAA
1 AAAAA
19268463 ATATCTAGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 4 0.11
7 27 0.73
8 6 0.16
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:19268426 original size:49 final size:49
Alignment explanation
Indices: 19268355--19268504 Score: 150
Period size: 49 Copynumber: 3.3 Consensus size: 49
19268345 ATAAAAAAAA
19268355 ACTATAAAATAAAAAAATAAAAAAATATCTAGAAAAATACATATTAAAATT
1 ACTA-AAAAT-AAAAAATAAAAAAATATCTAGAAAAATACATATTAAAATT
* *
19268406 ACTAAAAATAAAAAAT--AAAAAT-T-TA-AAAAA-A-AAACTATAAA--
1 ACTAAAAATAAAAAATAAAAAAATATCTAGAAAAATACATATTA-AAATT
19268447 A-T---A--AAAAAATAAAAAAATATCTAGAAAAATACATATTAAAATT
1 ACTAAAAATAAAAAATAAAAAAATATCTAGAAAAATACATATTAAAATT
19268490 ACTAAAAATAAAAAA
1 ACTAAAAATAAAAAA
19268505 AAAGTTCCGA
Statistics
Matches: 79, Mismatches: 4, Indels: 34
0.68 0.03 0.29
Matches are distributed among these distances:
35 7 0.09
37 7 0.09
38 1 0.01
39 2 0.03
40 6 0.08
41 5 0.06
42 8 0.10
43 5 0.06
44 6 0.08
45 2 0.03
46 1 0.01
47 7 0.09
49 13 0.16
50 5 0.06
51 4 0.05
ACGTcount: A:0.71, C:0.05, G:0.01, T:0.23
Consensus pattern (49 bp):
ACTAAAAATAAAAAATAAAAAAATATCTAGAAAAATACATATTAAAATT
Found at i:19268461 original size:9 final size:8
Alignment explanation
Indices: 19268409--19268465 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
19268399 TAAAATTACT
19268409 AAAAAT-A
1 AAAAATAA
19268416 AAAAATAA
1 AAAAATAA
**
19268424 AAATTTAA
1 AAAAATAA
*
19268432 AAAAAAAA
1 AAAAATAA
19268440 CTATAAAATAA
1 --A-AAAATAA
19268451 AAAAATAA
1 AAAAATAA
19268459 AAAAATA
1 AAAAATA
19268466 TCTAGAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
7 6 0.15
8 26 0.65
9 1 0.03
10 1 0.03
11 6 0.15
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAAATAA
Found at i:19268497 original size:42 final size:42
Alignment explanation
Indices: 19268367--19268505 Score: 169
Period size: 42 Copynumber: 3.3 Consensus size: 42
19268357 TATAAAATAA
19268367 AAAAATAAAAAAATATCTAGAAAAATACATATTAAAATTACT
1 AAAAATAAAAAAATATCTAGAAAAATACATATTAAAATTACT
* * * * *
19268409 AAAAATAAAAAATAAAAATTTA-AAAAAAAAACTA-TAAAA-TA-A
1 AAAAAT--AAAA-AAATATCTAGAAAAATACA-TATTAAAATTACT
19268451 AAAAATAAAAAAATATCTAGAAAAATACATATTAAAATTACT
1 AAAAATAAAAAAATATCTAGAAAAATACATATTAAAATTACT
19268493 AAAAATAAAAAAA
1 AAAAATAAAAAAA
19268506 AAGTTCCGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
39 9 0.11
40 16 0.20
41 2 0.03
42 25 0.32
43 2 0.03
44 16 0.20
45 9 0.11
ACGTcount: A:0.71, C:0.05, G:0.01, T:0.22
Consensus pattern (42 bp):
AAAAATAAAAAAATATCTAGAAAAATACATATTAAAATTACT
Found at i:19268505 original size:85 final size:86
Alignment explanation
Indices: 19268324--19268505 Score: 341
Period size: 84 Copynumber: 2.1 Consensus size: 86
19268314 TTCATAATTT
19268324 AAATAAAAAACATAAAAATTTATAAAAAAAAACTATAAAATAAAAAAATAAAAAAATATCTAGAA
1 AAATAAAAAA-ATAAAAATTTATAAAAAAAAACTATAAAATAAAAAAATAAAAAAATATCTAGAA
19268389 AAATACATATTAAAATTACTAA
65 AAATACATATTAAAATTACTAA
19268411 AAAT-AAAAAATAAAAATTTA-AAAAAAAAACTATAAAATAAAAAAATAAAAAAATATCTAGAAA
1 AAATAAAAAAATAAAAATTTATAAAAAAAAACTATAAAATAAAAAAATAAAAAAATATCTAGAAA
19268474 AATACATATTAAAATTACTAA
66 AATACATATTAAAATTACTAA
19268495 AAATAAAAAAA
1 AAATAAAAAAA
19268506 AAGTTCCGAA
Statistics
Matches: 94, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
84 68 0.72
85 17 0.18
86 5 0.05
87 4 0.04
ACGTcount: A:0.72, C:0.05, G:0.01, T:0.22
Consensus pattern (86 bp):
AAATAAAAAAATAAAAATTTATAAAAAAAAACTATAAAATAAAAAAATAAAAAAATATCTAGAAA
AATACATATTAAAATTACTAA
Found at i:19269352 original size:2 final size:2
Alignment explanation
Indices: 19269345--19269374 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19269335 CCATTCAATC
19269345 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19269375 ATTTGGATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19271323 original size:22 final size:22
Alignment explanation
Indices: 19271298--19271346 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
19271288 GTTACGGAGC
19271298 ATTACCAGAGT-TTACATATTAA
1 ATTACCAGA-TATTACATATTAA
* * *
19271320 ATTAACAGATATTTCATATTAT
1 ATTACCAGATATTACATATTAA
19271342 ATTAC
1 ATTAC
19271347 ATTCACATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (22 bp):
ATTACCAGATATTACATATTAA
Found at i:19287028 original size:39 final size:41
Alignment explanation
Indices: 19286948--19287029 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
19286938 GATTGAATGG
* * * *
19286948 ATTGAATTGATTATATATATTTGAATATATTGATTATTTGA
1 ATTGAAGTGAATATATATATGTGAATATATTGATTAATTGA
19286989 ATTGAAGTGAATATATATATGTGCAA-ATA-TGA-TAATTGA
1 ATTGAAGTGAATATATATATGTG-AATATATTGATTAATTGA
19287028 AT
1 AT
19287030 ATTGGTTGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 8 0.22
40 3 0.08
41 23 0.64
42 2 0.06
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (41 bp):
ATTGAAGTGAATATATATATGTGAATATATTGATTAATTGA
Found at i:19292433 original size:7 final size:7
Alignment explanation
Indices: 19292414--19292452 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
19292404 ATTTTCTTTT
19292414 GTTTAGG
1 GTTTAGG
19292421 GTTTTAGG
1 G-TTTAGG
*
19292429 GTTTAAG
1 GTTTAGG
19292436 GTTTAGG
1 GTTTAGG
*
19292443 GTTTAAG
1 GTTTAGG
19292450 GTT
1 GTT
19292453 ATTGTTGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:19292442 original size:14 final size:14
Alignment explanation
Indices: 19292423--19292452 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19292413 TGTTTAGGGT
19292423 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
19292437 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
19292451 TT
1 TT
19292453 ATTGTTGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:19296601 original size:13 final size:13
Alignment explanation
Indices: 19296585--19296610 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19296575 ATATGTTTTA
19296585 TGATTGTTTTGGT
1 TGATTGTTTTGGT
19296598 TGATTGTTTTGGT
1 TGATTGTTTTGGT
19296611 ACAGATCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:19298994 original size:24 final size:25
Alignment explanation
Indices: 19298949--19298995 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
19298939 TATAATTTAT
*
19298949 TTTATTTTTATGTAAAAATAAATAA
1 TTTATATTTATGTAAAAATAAATAA
*
19298974 TTTATATTTA-GTAAAAGTAAAT
1 TTTATATTTATGTAAAAATAAAT
19298996 TAAAATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
TTTATATTTATGTAAAAATAAATAA
Found at i:19309181 original size:12 final size:13
Alignment explanation
Indices: 19309153--19309196 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
19309143 TCAACAAACT
19309153 TTTAAAT-T-TTA
1 TTTAAATATATTA
19309164 TTTAAATATATT-
1 TTTAAATATATTA
19309176 TTTAAATA-ATTA
1 TTTAAATATATTA
*
19309188 TTTTAATAT
1 TTTAAATAT
19309197 GCAATCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 10 0.36
12 16 0.57
13 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTAAATATATTA
Found at i:19309195 original size:24 final size:23
Alignment explanation
Indices: 19309152--19309196 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
19309142 ATCAACAAAC
*
19309152 TTTTAAATTTTATTTAAATATAT
1 TTTTAAATATTATTTAAATATAT
*
19309175 TTTTAAATAATTATTTTAATAT
1 TTTTAAAT-ATTATTTAAATAT
19309197 GCAATCATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAAATATTATTTAAATATAT
Found at i:19311967 original size:30 final size:29
Alignment explanation
Indices: 19311903--19312058 Score: 156
Period size: 29 Copynumber: 5.2 Consensus size: 29
19311893 ACAAAAAATA
*
19311903 AAAATTACATTTTGACCCCTAAAAATTT-T
1 AAAATTACATTTTGACCCCT-AAATTTTCT
*
19311932 AAAATTGCATTTTGACCCCTAAATTTTCCT
1 AAAATTACATTTTGACCCCTAAATTTT-CT
*
19311962 AAAATTATATTTTGACCCCTAAAACTTTTTCT
1 AAAATTACATTTTGACCCCT-AAA--TTTTCT
* *
19311994 -AAATTACATTTTGACCCATAAACTATT-T
1 AAAATTACATTTTGACCCCTAAA-TTTTCT
* * *
19312022 GAAATTGCATTTTGACTCCTAAATTTTCCT
1 AAAATTACATTTTGACCCCTAAATTTT-CT
19312052 AAAATTA
1 AAAATTA
19312059 TACTTGGGCC
Statistics
Matches: 105, Mismatches: 14, Indels: 15
0.78 0.10 0.11
Matches are distributed among these distances:
28 10 0.10
29 41 0.39
30 28 0.27
31 20 0.19
32 2 0.02
33 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCTAAATTTTCT
Found at i:19312089 original size:90 final size:90
Alignment explanation
Indices: 19311904--19312082 Score: 254
Period size: 90 Copynumber: 2.0 Consensus size: 90
19311894 CAAAAAATAA
*
19311904 AAATTACATTTTGACCCCTAAAAATTTTAAAATTGCATTTTGACCCCTAAATTTTCCTAAAATTA
1 AAATTACATTTTGACCCATAAAAATTTTAAAATTGCATTTTGACCCCTAAATTTTCCTAAAATTA
* *
19311969 TATTTTGACCCCTAAAACTTTTTCT
66 TATCTTGACCCCTAAAACTTTTACT
* * *
19311994 AAATTACATTTTGACCCAT-AAACTATTTGAAATTGCATTTTGACTCCTAAATTTTCCTAAAATT
1 AAATTACATTTTGACCCATAAAAAT-TTTAAAATTGCATTTTGACCCCTAAATTTTCCTAAAATT
** *
19312058 ATA-CTTGGGCCCTAAAAGTTTTACT
65 ATATCTTGACCCCTAAAACTTTTACT
19312083 GTAATTATAG
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 21 0.27
90 58 0.73
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (90 bp):
AAATTACATTTTGACCCATAAAAATTTTAAAATTGCATTTTGACCCCTAAATTTTCCTAAAATTA
TATCTTGACCCCTAAAACTTTTACT
Found at i:19312405 original size:3 final size:3
Alignment explanation
Indices: 19312399--19312435 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
19312389 TAGGGCCTCC
19312399 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
19312436 AGAAAAAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:19312456 original size:22 final size:21
Alignment explanation
Indices: 19312425--19312484 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
19312415 GAAGAAGAAG
19312425 AAGAAGAAGAAAGAAAAAACAAA
1 AAGAA-AAGAAAGAAAAAA-AAA
*
19312448 AAGAAAAGAAAGAAAACAAAA
1 AAGAAAAGAAAGAAAAAAAAA
*
19312469 AACAAAA-AAATGAAAA
1 AAGAAAAGAAA-GAAAA
19312485 TATTCGGATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.09
21 14 0.41
22 12 0.35
23 5 0.15
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (21 bp):
AAGAAAAGAAAGAAAAAAAAA
Found at i:19312460 original size:26 final size:27
Alignment explanation
Indices: 19312422--19312476 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
19312412 GAAGAAGAAG
*
19312422 AAGAAGAAGAAG-AAAGAAAAAACAAA
1 AAGAAGAAGAAGAAAACAAAAAACAAA
19312448 AAGAA-AAGAAAGAAAACAAAAAACAAA
1 AAGAAGAAG-AAGAAAACAAAAAACAAA
19312475 AA
1 AA
19312477 AATGAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 3 0.12
26 8 0.31
27 15 0.58
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (27 bp):
AAGAAGAAGAAGAAAACAAAAAACAAA
Found at i:19312463 original size:20 final size:22
Alignment explanation
Indices: 19312404--19312469 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 22
19312394 CCTCCAGAAG
* * *
19312404 AAGAAGAAG-AAGAAGAAGAAG
1 AAGAAGAAGAAAGAAAAACAAA
19312425 AAGAAGAAGAAAGAAAAAACAAA
1 AAGAAGAAGAAAG-AAAAACAAA
19312448 AAGAA-AAGAAAG-AAAACAAA
1 AAGAAGAAGAAAGAAAAACAAA
19312468 AA
1 AA
19312470 ACAAAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 10 0.25
21 9 0.22
22 10 0.25
23 11 0.28
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (22 bp):
AAGAAGAAGAAAGAAAAACAAA
Found at i:19312601 original size:12 final size:12
Alignment explanation
Indices: 19312576--19312608 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19312566 TATTTTTTTT
19312576 AAAA-AAAAAGC
1 AAAACAAAAAGC
*
19312587 AAAACAAAAATC
1 AAAACAAAAAGC
19312599 AAAACAAAAA
1 AAAACAAAAA
19312609 AACAGCCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.82, C:0.12, G:0.03, T:0.03
Consensus pattern (12 bp):
AAAACAAAAAGC
Found at i:19312753 original size:24 final size:24
Alignment explanation
Indices: 19312710--19312763 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
19312700 GACCAACAGC
**
19312710 GCAGGCCCAGCGCAGGCCAGCACCA
1 GCAGGCCCAGCGCACACCAGC-CCA
19312735 GCAGGCCC-GCGCACACCAGCCCA
1 GCAGGCCCAGCGCACACCAGCCCA
*
19312758 ACAGGC
1 GCAGGC
19312764 AGCCCACCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 8 0.31
24 10 0.38
25 8 0.31
ACGTcount: A:0.24, C:0.46, G:0.30, T:0.00
Consensus pattern (24 bp):
GCAGGCCCAGCGCACACCAGCCCA
Found at i:19312836 original size:23 final size:23
Alignment explanation
Indices: 19312794--19312843 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
19312784 GGGAAGGAAA
*
19312794 AAAGAAAAAAAGCAAACAAAAGAG
1 AAAGAAAAAAA-CAAACAAAAAAG
19312818 AAAGAAAAAAA-AAAGCAAAAAAG
1 AAAGAAAAAAACAAA-CAAAAAAG
19312841 AAA
1 AAA
19312844 AAGTCCGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 3 0.12
23 10 0.42
24 11 0.46
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAAACAAACAAAAAAG
Found at i:19313236 original size:17 final size:18
Alignment explanation
Indices: 19313211--19313252 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
19313201 GTGTTATTTT
19313211 GTGTTTTCAAAAATTATC
1 GTGTTTTCAAAAATTATC
*
19313229 GT-TTTTCAAAAATTTTC
1 GTGTTTTCAAAAATTATC
19313246 GTGTTTT
1 GTGTTTT
19313253 GTAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (18 bp):
GTGTTTTCAAAAATTATC
Found at i:19313258 original size:17 final size:17
Alignment explanation
Indices: 19313238--19313276 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
19313228 CGTTTTTCAA
19313238 AAATTTTCGTGTTTTGT
1 AAATTTTCGTGTTTTGT
* *
19313255 AAATTTTCGTTTTTTTT
1 AAATTTTCGTGTTTTGT
19313272 AAATT
1 AAATT
19313277 CTCCTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (17 bp):
AAATTTTCGTGTTTTGT
Found at i:19313384 original size:17 final size:17
Alignment explanation
Indices: 19313364--19313525 Score: 114
Period size: 17 Copynumber: 9.2 Consensus size: 17
19313354 TATTGTTTCA
*
19313364 AAAATTTTCGTATTTTT
1 AAAATTTTCGTGTTTTT
*
19313381 AAAAATTCTCGTGTTTTGT
1 -AAAATTTTCGTGTTTT-T
*
19313400 -AAATTTTCATGTTTTT
1 AAAATTTTCGTGTTTTT
* * **
19313416 AAAATTCTCGTATTTCA
1 AAAATTTTCGTGTTTTT
* *
19313433 AAAATTTCCGTGTTTTCAA
1 AAAATTTTCGTGTTTT--T
**
19313452 AAAAAATTCGTG-TTTT
1 AAAATTTTCGTGTTTTT
*
19313468 AAGAATTTTCGTGTTTCT
1 AA-AATTTTCGTGTTTTT
*
19313486 AAAATTCTCGTG-TTTT
1 AAAATTTTCGTGTTTTT
19313502 AAAATTTTTTCGTGTTTTT
1 AAAA--TTTTCGTGTTTTT
19313521 CAAAA
1 -AAAA
19313526 AAAATAATTG
Statistics
Matches: 111, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
16 10 0.09
17 53 0.48
18 29 0.26
19 15 0.14
20 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (17 bp):
AAAATTTTCGTGTTTTT
Found at i:19313425 original size:34 final size:33
Alignment explanation
Indices: 19313364--19313525 Score: 146
Period size: 34 Copynumber: 4.6 Consensus size: 33
19313354 TATTGTTTCA
*
19313364 AAAATTTTCGTATTTTTAAAAATTCTCGTGTTTT
1 AAAATTTTCGTGTTTTT-AAAATTCTCGTGTTTT
* * * *
19313398 GTAAATTTTCATGTTTTTAAAATTCTCGTATTTCA
1 -AAAATTTTCGTGTTTTTAAAATTCTCGTGTTT-T
* * *
19313433 AAAATTTCCGTGTTTTCAAAAAAAAT-TCGTGTTTT
1 AAAATTTTCGTGTTTT---TAAAATTCTCGTGTTTT
*
19313468 AAGAATTTTCGTGTTTCTAAAATTCTCGTGTTTT
1 AA-AATTTTCGTGTTTTTAAAATTCTCGTGTTTT
19313502 AAAATTTTTTCGTGTTTTTCAAAA
1 AAAA--TTTTCGTGTTTTT-AAAA
19313526 AAAATAATTG
Statistics
Matches: 101, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
33 7 0.07
34 38 0.38
35 28 0.28
36 23 0.23
37 5 0.05
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (33 bp):
AAAATTTTCGTGTTTTTAAAATTCTCGTGTTTT
Found at i:19313475 original size:70 final size:71
Alignment explanation
Indices: 19313359--19313530 Score: 199
Period size: 70 Copynumber: 2.4 Consensus size: 71
19313349 AAATCTATTG
* * * * *
19313359 TTTCAAAAATTTTCGTATTTT--TAAAAATTCTCGTGTTTTGTAAATTTTCATGTTTTTAAAATT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATCTCGTGTTTTGAAAATTTTCATGTTTCTAAAATT
19313422 CTCGTA
66 CTCGTA
* *
19313428 TTTCAAAAATTTCCGTGTTTTCAAAAAAAAT-TCGTGTTTT-AAGAATTTTCGTGTTTCTAAAAT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATCTCGTGTTTTGAA-AATTTTCATGTTTCTAAAAT
*
19313491 TCTCGTG
65 TCTCGTA
* *
19313498 TTTTAAAATTTTTTCGTGTTTTTCAAAAAAAAT
1 TTTCAAAA-ATTTTCGTG-TTTTCAAAAAAAAT
19313531 AATTGTTTCG
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
69 20 0.23
70 40 0.46
71 13 0.15
72 14 0.16
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (71 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAATCTCGTGTTTTGAAAATTTTCATGTTTCTAAAATT
CTCGTA
Found at i:19313481 original size:36 final size:36
Alignment explanation
Indices: 19313335--19313530 Score: 115
Period size: 35 Copynumber: 5.5 Consensus size: 36
19313325 AAAAAAATCC
* ** *
19313335 TCGTGTTAT-AAAAAAAATCTATTGTTTCAAAAATTT
1 TCGTGTTTTCAAAAAAAATCTCGTGTTT-TAAAATTT
* * * *
19313371 TCGTATTTT--TAAAAATTCTCGTGTTTTGTAAATTT
1 TCGTGTTTTCAAAAAAAATCTCGTGTTTT-AAAATTT
* * * * *
19313406 TCATGTTTT---TAAAATTCTCGTATTTCAAAAATTT
1 TCGTGTTTTCAAAAAAAATCTCGTGTTT-TAAAATTT
*
19313440 CCGTGTTTTCAAAAAAAAT-TCGTGTTTTAAGAATTT
1 TCGTGTTTTCAAAAAAAATCTCGTGTTTTAA-AATTT
* *
19313476 TCGTG-TTTC--TAAAATTCTCGTGTTTTAAAATTTTT
1 TCGTGTTTTCAAAAAAAATCTCGTGTTTTAAAA--TTT
19313511 TCGTGTTTTTCAAAAAAAAT
1 TCGTG-TTTTCAAAAAAAAT
19313531 AATTGTTTCG
Statistics
Matches: 122, Mismatches: 25, Indels: 23
0.72 0.15 0.14
Matches are distributed among these distances:
33 7 0.06
34 38 0.31
35 40 0.33
36 23 0.19
37 9 0.07
39 5 0.04
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.47
Consensus pattern (36 bp):
TCGTGTTTTCAAAAAAAATCTCGTGTTTTAAAATTT
Found at i:19313967 original size:21 final size:21
Alignment explanation
Indices: 19313941--19313981 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19313931 ACACACCCAT
*
19313941 TTTCCTTTTTCGTTTGAACCA
1 TTTCCTTTTTCGTTTAAACCA
*
19313962 TTTCCTTTTTTGTTTAAACC
1 TTTCCTTTTTCGTTTAAACC
19313982 CTAATGACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTCCTTTTTCGTTTAAACCA
Found at i:19320921 original size:14 final size:14
Alignment explanation
Indices: 19320902--19320934 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
19320892 AAGCCCAAAA
19320902 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
19320916 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
19320930 CCAAA
1 CCAAA
19320935 CCAAACAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (14 bp):
CCAAATTCAGTGGC
Found at i:19322909 original size:98 final size:98
Alignment explanation
Indices: 19322788--19322979 Score: 314
Period size: 98 Copynumber: 2.0 Consensus size: 98
19322778 AATCATGAAA
* *
19322788 GAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTTAAA
19322853 TCTTGGAT-AAGTGGATGTTCTTTTAAAGTAAAG
66 TCTTGGATGAA-TGGATGTTCTTTTAAAGTAAAG
* **
19322886 GAAATATTCCGAGTTTGGGATTCTAAAGGGGTCGTGCCCTAACGTATTAGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTTAAA
*
19322951 TCTTGGATGTATGGATGTTCTTTTAAAGT
66 TCTTGGATGAATGGATGTTCTTTTAAAGT
19322980 TTTATTGCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 86 0.99
99 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTTAAA
TCTTGGATGAATGGATGTTCTTTTAAAGTAAAG
Done.